prolineconcepts:rs_rsm
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| - | ====== NOT USED ANY MORE !!!! Search Result and Identification Summary ====== | ||
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| - | A **Search Result** (aka [[:msidb_documentation#result_set|ResultSet]] in the database schema) is the raw interpretation of a given set of MS/MS spectra given by a search engine or a denovo interpretation process. The content of a **Search Result** is one or many peptides matching to the submitted MSMS spectrum (**PSM**), each peptide being issued from protein sequences. The Search Result also contains additional information such as search parameters, used data-bank, etc. A **Search Result** is created when a [[prolineconcepts:resultfile|]] (Mascot ''.dat'' file or an OMSSA ''.omx'') file is imported in Proline, in the case of a target-decoy search, two **Search Results** are created : one for the target PSM, one for decoy PSM. | ||
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| - | An **Identification Summary** (aka [[:msidb_documentation#result_summary|ResultSummary]]) is a set of identified proteins inferred from a subset of the PSM contained in the *Search Result*. The subset of PSM taken into account are the PSM that have been validated a filtering process (example: PSM fulfilling some specified criteria such as score greater than a threshold value). | ||
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| - | ===== Content of a Search Result ===== | ||
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| - | Importing a [[prolineconcepts:resultfile|]] creates a new [[prolineconcepts:rs_rsm|Search Result]] in the database which contains the following informations: | ||
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| - | * Search Settings : software name and version, parameters values | ||
| - | * Peak List and Spectrum information : file name, ms-level, precursor moz, ... | ||
| - | * Search result data: | ||
| - | * Proteins | ||
| - | * Peptide | ||
| - | * Spectrum | ||
| - | * 2 type of Matches | ||
| - | * a Peptide Match is a match between a peptide and a spectrum, with score, fragment matches ... | ||
| - | * a Protein Matches is a match between a peptide and a protein | ||
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| - | ==== Mascot result importation ==== | ||
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| - | FIXME : todo | ||
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| - | The peptide matches score correspond to Mascot ion score | ||
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| - | ==== OMSSA result importation ==== | ||
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| - | FIXME : todo | ||
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| - | The peptide matches score correspond to the negative common logarithm of the E-value: | ||
| - | * Score = -log10(E-value) | ||
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| - | ===== Content of an Identification Summary ===== | ||
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| - | * Protein Set : | ||
| - | * Peptide Set : | ||
prolineconcepts/rs_rsm.1459261115.txt.gz · Last modified: 2016/03/29 16:18 by 132.168.72.225
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